Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007741.1 Hibiscus syriacus cultivar Beakdansim tig00110004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1550271
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:764103 original size:12 final size:12
Alignment explanation
Indices: 764090--764201 Score: 143
Period size: 12 Copynumber: 9.3 Consensus size: 12
764080 GTTTGGATCA
* *
764090 TCATCATCATCA
1 TCATCTTCATCG
* * *
764102 TCATCGTCGTCA
1 TCATCTTCATCG
764114 TCATCTTCATCG
1 TCATCTTCATCG
764126 TCATCTTCATCG
1 TCATCTTCATCG
*
764138 TCAGCTTCATCG
1 TCATCTTCATCG
*
764150 TCATCATCATCG
1 TCATCTTCATCG
764162 TCATCTTCATCG
1 TCATCTTCATCG
764174 TCATCTTCATCG
1 TCATCTTCATCG
* *
764186 TCAGCTTCATCT
1 TCATCTTCATCG
764198 TCAT
1 TCAT
764202 TGACCGCTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 88 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:764201 original size:6 final size:6
Alignment explanation
Indices: 764090--764188 Score: 99
Period size: 6 Copynumber: 16.5 Consensus size: 6
764080 GTTTGGATCA
* * * * * *
764090 TCATCA TCATCA TCATCG TCGTCA TCATCT TCATCG TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
* * * * *
764138 TCAGCT TCATCG TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
764186 TCA
1 TCA
764189 GCTTCATCTT
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.20, C:0.33, G:0.09, T:0.37
Consensus pattern (6 bp):
TCATCG
Found at i:764973 original size:66 final size:66
Alignment explanation
Indices: 764867--764998 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
764857 ATCGAGGTGA
764867 ATTGGGCTATTTCTAGCAACCCGTTTAATTGTAGACCATATACACCATTTTCATCTGAATCCCCT
1 ATTGGGCTATTTCTAGCAACCCGTTTAATTGTAGACCATATACACCATTTTCATCTGAATCCCCT
764932 T
66 T
764933 ATTGGGCTATTTCTAGCAACCCGTTTAATTGTAGACCATATACACCATTTTCATCTGAATCCCCT
1 ATTGGGCTATTTCTAGCAACCCGTTTAATTGTAGACCATATACACCATTTTCATCTGAATCCCCT
764998 T
66 T
764999 TATTCGCTAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (66 bp):
ATTGGGCTATTTCTAGCAACCCGTTTAATTGTAGACCATATACACCATTTTCATCTGAATCCCCT
T
Found at i:766202 original size:196 final size:199
Alignment explanation
Indices: 765702--766666 Score: 1717
Period size: 196 Copynumber: 4.9 Consensus size: 199
765692 TTTAAATTAG
* *
765702 TATCGACACAAAAT-AAAAAGTATCGACACATT-TTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
765765 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
765830 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
765895 AAAA
196 AAAA
*
765899 TATCGACACAAACTAAAAAAGGGTCGACACATT-TTTAGACATATTC-CTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
765962 CTTGTACCGGTTAGATTGAAAAATTATATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
766027 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTGCCATTCATTCTGGACC-
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
766090 AAAA
196 AAAA
766094 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
766158 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
766222 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
766287 AAAAA
195 AAAAA
*
766292 TATCGACACAAACTAAAAAAGGGTCG--ACATTATTTAGACATATTCTCTCATAAAA-CGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
766354 CTTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
766418 TCGACACTTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
766482 AAAA
196 AAAA
766486 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAACCGGTAT
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACCGGTAT
*
766551 ACTTGTAACGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGG-TTTCGATGTTTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
* *
766614 ATCGACACTTTTATATATGGATCGACACGTTATGGTTGCATCCTGTTTGCCAT
130 ATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
766667 ATTGTAAATT
Statistics
Matches: 742, Mismatches: 12, Indels: 27
0.95 0.02 0.03
Matches are distributed among these distances:
194 82 0.11
195 105 0.14
196 209 0.28
197 198 0.27
198 132 0.18
199 16 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
AAAA
Found at i:766546 original size:393 final size:393
Alignment explanation
Indices: 765702--766666 Score: 1725
Period size: 393 Copynumber: 2.5 Consensus size: 393
765692 TTTAAATTAG
* *
765702 TATCGACACAAAAT-AAAAAGTATCGACACATT-TTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
765765 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTAGTTTTCGATGTTTTTGGGA
66 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
765830 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
765895 AAAATATCGACACAAACTAAAAAAGGGTCGACACATTTTTAGACATATTCCTCATAAAACCGGTA
196 AAAATATCGACACAAACTAAAAAAGGGTCGA-ACATTTTTAGACATATTCCTCATAAAACCGGTA
*
765960 TACTTGTACCGGTTAGATTGAAAAATTATATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
260 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
766025 GATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACC
325 GATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACC
766090 AAAA
390 AAAA
766094 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
766158 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
766222 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
766287 AAAAATATCGACACAAACTAAAAAAGGGTCG-ACATTATTTAGACATATTCTCTCATAAAA-CGG
195 AAAAATATCGACACAAACTAAAAAAGGGTCGAACATT-TTTAGACATATTC-CTCATAAAACCGG
766350 TATACTTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
258 TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
766414 GGGATCGACACTTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
323 GGGATCGACACTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTGCCATTCATTCTGG
766478 ACCAAAAA
387 ACC-AAAA
766486 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAACCGGTAT
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAAACCGGTAT
766551 ACTTGTAACGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGG-TTTCGATGTTTTTGGG
65 ACTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
* *
766614 ATCGACACTTTTATATATGGATCGACACGTTATGGTTGCATCCTGTTTGCCAT
130 ATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
766667 ATTGTAAATT
Statistics
Matches: 555, Mismatches: 8, Indels: 20
0.95 0.01 0.03
Matches are distributed among these distances:
390 27 0.05
391 97 0.17
392 162 0.29
393 217 0.39
394 52 0.09
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (393 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTAACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
AAAATATCGACACAAACTAAAAAAGGGTCGAACATTTTTAGACATATTCCTCATAAAACCGGTAT
ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
ATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACCA
AAA
Found at i:766787 original size:18 final size:18
Alignment explanation
Indices: 766764--766824 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
766754 TCTCATTCAT
*
766764 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
766782 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
766801 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
766820 AATTA
1 AATTA
766825 CCCTACATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:766800 original size:19 final size:19
Alignment explanation
Indices: 766776--766824 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
766766 TTATATTCAC
766776 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
766795 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
766814 ATACAAAATTA
1 ATACAAAATTA
766825 CCCTACATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:768620 original size:33 final size:33
Alignment explanation
Indices: 768583--768648 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
768573 CATCTTAATA
* *
768583 TCACCTCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
768616 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
768649 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:768705 original size:21 final size:21
Alignment explanation
Indices: 768692--768744 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
768682 CTCAAATGTA
768692 TCTTCGACTCTCTCAAGTTTC
1 TCTTCGACTCTCTCAAGTTTC
* *
768713 TCTTCGACTTTATCAAGTTTC
1 TCTTCGACTCTCTCAAGTTTC
768734 TCTTCGACTCT
1 TCTTCGACTCT
768745 TGATTGTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.30, G:0.09, T:0.45
Consensus pattern (21 bp):
TCTTCGACTCTCTCAAGTTTC
Found at i:773874 original size:2 final size:2
Alignment explanation
Indices: 773867--773912 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
773857 ACCAATTTCT
773867 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
773908 TA TA T
1 TA TA T
773913 TTATTTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:773990 original size:39 final size:38
Alignment explanation
Indices: 773937--774031 Score: 136
Period size: 39 Copynumber: 2.5 Consensus size: 38
773927 ATTTTTATTT
*
773937 CTAATTCTTAAATTATTTAACCATGAAATTCTAAATTC
1 CTAATTCTTAAATTATTTAACCATGAAATTCTAAATTA
* * *
773975 CTAATTTCTCAAATTATTAAACCATGACATTCTAAATTA
1 CTAA-TTCTTAAATTATTTAACCATGAAATTCTAAATTA
*
774014 TTAATTCTTAAATTATTT
1 CTAATTCTTAAATTATTT
774032 CATCCTAACA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
38 16 0.33
39 33 0.67
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (38 bp):
CTAATTCTTAAATTATTTAACCATGAAATTCTAAATTA
Found at i:775201 original size:27 final size:27
Alignment explanation
Indices: 775171--775225 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
775161 TCACGCCTAA
775171 TGTTTTCCACTCCTTTCATTATCTCCT
1 TGTTTTCCACTCCTTTCATTATCTCCT
775198 TGTTTTCCACTCCTTTCATTATCTCCT
1 TGTTTTCCACTCCTTTCATTATCTCCT
775225 T
1 T
775226 TTCTCTCCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.33, G:0.04, T:0.53
Consensus pattern (27 bp):
TGTTTTCCACTCCTTTCATTATCTCCT
Found at i:778598 original size:38 final size:39
Alignment explanation
Indices: 778553--778643 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
778543 TGTTAGGATG
*
778553 AAATAATTTAAGAAATTAATAA-TTAGAATGTCATGGTT
1 AAATAATTTAAGAAATTAAGAATTTAGAATGTCATGGTT
* * * *
778591 TAATAATTTGAGAAATTAGGAATTTAGAATTTCATGGTT
1 AAATAATTTAAGAAATTAAGAATTTAGAATGTCATGGTT
778630 AAATAATTTAAGAA
1 AAATAATTTAAGAA
778644 TTAGAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 18 0.40
39 27 0.60
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.37
Consensus pattern (39 bp):
AAATAATTTAAGAAATTAAGAATTTAGAATGTCATGGTT
Found at i:779995 original size:21 final size:21
Alignment explanation
Indices: 779970--780009 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
779960 AACCATTCAC
779970 GGGGGAATCGGTACCCTCTTG
1 GGGGGAATCGGTACCCTCTTG
*
779991 GGGGGAATCGGTTCCCTCT
1 GGGGGAATCGGTACCCTCT
780010 GAGCAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTACCCTCTTG
Found at i:780344 original size:30 final size:30
Alignment explanation
Indices: 780310--780371 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
780300 TGAAATCAAG
* *
780310 TTTTGAAATTACTCCTCCTTAGTCTAACAC
1 TTTTGAAATTACTCCCCCTTACTCTAACAC
780340 TTTTGAAATTACTCCCCCTTACTCTAACAC
1 TTTTGAAATTACTCCCCCTTACTCTAACAC
780370 TT
1 TT
780372 CTCCCCTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.40
Consensus pattern (30 bp):
TTTTGAAATTACTCCCCCTTACTCTAACAC
Found at i:782635 original size:23 final size:22
Alignment explanation
Indices: 782605--782666 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
782595 TGTGGGGGGG
782605 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTC-AA
*
782628 GGGGGAATCGGATCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
* *
782650 GGGAGGTATCGATTCCC
1 GGG-GGAATCGGTTCCC
782667 TCTGCACCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:782667 original size:22 final size:23
Alignment explanation
Indices: 782605--782649 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
782595 TGTGGGGGGG
*
782605 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGATCCCCTTCAAA
782628 GGGGGAATCGGATCCCCTTCAA
1 GGGGGAATCGGATCCCCTTCAA
782650 GGGAGGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.31, T:0.20
Consensus pattern (23 bp):
GGGGGAATCGGATCCCCTTCAAA
Found at i:791967 original size:18 final size:19
Alignment explanation
Indices: 791944--791986 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
791934 GAACAATATT
791944 GATACTGAATGT-A-GTATC
1 GATACT-AATGTGAGGTATC
791962 GATACTAATGTGGAGGTATC
1 GATACTAATGT-GAGGTATC
791982 GATAC
1 GATAC
791987 CAAGAGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.23
18 6 0.27
19 1 0.05
20 10 0.45
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (19 bp):
GATACTAATGTGAGGTATC
Found at i:792515 original size:15 final size:15
Alignment explanation
Indices: 792448--792517 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
792438 ATTTTATTAG
*
792448 TATGTGAATATGTTA
1 TATGTGAATATGTTC
* *
792463 TACGGGAATATGTTC
1 TATGTGAATATGTTC
*
792478 T-TCGTGAAAATGTTC
1 TAT-GTGAATATGTTC
* * *
792493 TTTATGAATGTGTTC
1 TATGTGAATATGTTC
792508 TATGTGAATA
1 TATGTGAATA
792518 AAAGATATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
15 40 0.98
16 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (15 bp):
TATGTGAATATGTTC
Found at i:792646 original size:23 final size:23
Alignment explanation
Indices: 792620--792671 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
792610 GAGTCGAGGG
792620 TTCTACATAGTCATTCGGAACAA
1 TTCTACATAGTCATTCGGAACAA
** * *
792643 TTCTATGTGGTCATTCGGGACAA
1 TTCTACATAGTCATTCGGAACAA
792666 TTCTAC
1 TTCTAC
792672 GCGGTCCATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (23 bp):
TTCTACATAGTCATTCGGAACAA
Found at i:792677 original size:23 final size:23
Alignment explanation
Indices: 792629--792677 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
792619 GTTCTACATA
* *
792629 GTCATTCGGAACAATTCTATGTG
1 GTCATTCGGAACAATTCTACGCG
*
792652 GTCATTCGGGACAATTCTACGCG
1 GTCATTCGGAACAATTCTACGCG
792675 GTC
1 GTC
792678 CATCTGGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (23 bp):
GTCATTCGGAACAATTCTACGCG
Found at i:797252 original size:19 final size:19
Alignment explanation
Indices: 797205--797244 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
797195 AAAGTGGAAG
797205 AGGTGACATGGGAGCGTGA
1 AGGTGACATGGGAGCGTGA
797224 AGGTGACATGGGAGCGTGA
1 AGGTGACATGGGAGCGTGA
797243 AG
1 AG
797245 AGGACATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.47, T:0.15
Consensus pattern (19 bp):
AGGTGACATGGGAGCGTGA
Found at i:798670 original size:15 final size:15
Alignment explanation
Indices: 798647--798716 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 15
798637 ATTTTATTAG
798647 TATGTGAATATGTTA
1 TATGTGAATATGTTA
* * *
798662 TATGGGAATGTGTTC
1 TATGTGAATATGTTA
* * *
798677 TACGTGAAAATGTTC
1 TATGTGAATATGTTA
* *
798692 TATGTAAATGTGTTA
1 TATGTGAATATGTTA
798707 TATGTGAATA
1 TATGTGAATA
798717 AATGATACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.41
Consensus pattern (15 bp):
TATGTGAATATGTTA
Found at i:798690 original size:30 final size:30
Alignment explanation
Indices: 798650--798714 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
798640 TTATTAGTAT
* * *
798650 GTGAATATGTTATATGGGAATGTGTTCTAC
1 GTGAAAATGTTATATGGAAATGTGTTATAC
* * *
798680 GTGAAAATGTTCTATGTAAATGTGTTATAT
1 GTGAAAATGTTATATGGAAATGTGTTATAC
798710 GTGAA
1 GTGAA
798715 TAAATGATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.40
Consensus pattern (30 bp):
GTGAAAATGTTATATGGAAATGTGTTATAC
Found at i:798854 original size:23 final size:23
Alignment explanation
Indices: 798828--798897 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
798818 CTTCTACGCT
*
798828 GTCCTTCGGGACAATTCTATGTG
1 GTCCTTCGGGACAATTCTAAGTG
* * **
798851 GTCCTTCAGGACAATTCTACGCA
1 GTCCTTCGGGACAATTCTAAGTG
* *
798874 GTCCTTTGGGACAAATCTAAGTG
1 GTCCTTCGGGACAATTCTAAGTG
798897 G
1 G
798898 CAATTCAGTG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (23 bp):
GTCCTTCGGGACAATTCTAAGTG
Found at i:798905 original size:46 final size:47
Alignment explanation
Indices: 798819--798918 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 47
798809 GAGTCGAGGC
* * * *
798819 TTCTACGCTGTCCTTCGGGACAATTCTATGTGGTCCTTCAG-GACA-A
1 TTCTACGCAGTCCTTCGGGACAAATCTAAGTGGTCATTCAGTG-CATA
*
798865 TTCTACGCAGTCCTTTGGGACAAATCTAAGTGG-CAATTCAGTGCATA
1 TTCTACGCAGTCCTTCGGGACAAATCTAAGTGGTC-ATTCAGTGCATA
798912 TTCTACG
1 TTCTACG
798919 TGAGACTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.02
46 36 0.78
47 9 0.20
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (47 bp):
TTCTACGCAGTCCTTCGGGACAAATCTAAGTGGTCATTCAGTGCATA
Found at i:804770 original size:2 final size:2
Alignment explanation
Indices: 804763--804788 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
804753 AGTATTCCAT
804763 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
804789 AATCTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:805538 original size:28 final size:29
Alignment explanation
Indices: 805447--805538 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 29
805437 ATTATTTTCT
* *
805447 AAAAAAACCCCATGAAAGTATTA-AAATTCCC
1 AAAAAAACCCC-T-AAA-TTTTAGAAAATCCC
*
805478 AAAAAAACCCCTAAATTTTAGAAAATTCC
1 AAAAAAACCCCTAAATTTTAGAAAATCCC
*
805507 -AAAAAA-CCCTAAATTCTTA-AGAATCCC
1 AAAAAAACCCCTAAATT-TTAGAAAATCCC
805534 AAAAA
1 AAAAA
805539 CCCTTAAACT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
27 15 0.28
28 17 0.32
29 9 0.17
30 1 0.02
31 11 0.21
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.21
Consensus pattern (29 bp):
AAAAAAACCCCTAAATTTTAGAAAATCCC
Found at i:805546 original size:27 final size:27
Alignment explanation
Indices: 805469--805542 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
805459 TGAAAGTATT
805469 AAAATTCCCAAAAAAACCCCTAAATTTTAG
1 AAAATT-CC-AAAAAA-CCCTAAATTTTAG
805499 AAAATTCCAAAAAACCCTAAATTCTTA-
1 AAAATTCCAAAAAACCCTAAATT-TTAG
* *
805526 AGAA-TCCCAAAAACCCT
1 AAAATTCCAAAAAACCCT
805543 TAAACTCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 12 0.29
27 12 0.29
28 9 0.22
29 2 0.05
30 6 0.15
ACGTcount: A:0.50, C:0.26, G:0.03, T:0.22
Consensus pattern (27 bp):
AAAATTCCAAAAAACCCTAAATTTTAG
Found at i:806171 original size:29 final size:31
Alignment explanation
Indices: 806106--806194 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 31
806096 TTAAGTGATG
* * * *
806106 ATAAAGATAAAATATATATTTTTACA-TTAAA
1 ATAAAAATAAAAGATA-ATTTTAAAATTTAAA
*
806137 ATAAAAATAAAATAT-A-TTTAATAATTT-AA
1 ATAAAAATAAAAGATAATTTTAA-AATTTAAA
806166 A-AAAAATAAAAGATAATTTTAAAATTTAA
1 ATAAAAATAAAAGATAATTTTAAAATTTAA
806195 GATACATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
28 16 0.33
29 11 0.22
30 8 0.16
31 14 0.29
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (31 bp):
ATAAAAATAAAAGATAATTTTAAAATTTAAA
Found at i:809082 original size:20 final size:21
Alignment explanation
Indices: 809059--809111 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
809049 CCCAGGGTGG
* *
809059 GTATCAATACTGAAGGGTTT-
1 GTATCGATACTAAAGGGTTTA
*
809079 GTATTGATACTAAAGGGTTTA
1 GTATCGATACTAAAGGGTTTA
809100 GTATCGATACTA
1 GTATCGATACTA
809112 TCGTACTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (21 bp):
GTATCGATACTAAAGGGTTTA
Found at i:811153 original size:19 final size:19
Alignment explanation
Indices: 811124--811177 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
811114 GTTGGAACCC
811124 CAAGTTTTGAAACTTTGATG
1 CAAGTTTTGAAACTTTGA-G
811144 CAAG-TTTGAAACTATTGAG
1 CAAGTTTTGAAACT-TTGAG
*
811163 AAAGTTTTGAAACTT
1 CAAGTTTTGAAACTT
811178 ATAAACATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (19 bp):
CAAGTTTTGAAACTTTGAG
Found at i:813359 original size:70 final size:70
Alignment explanation
Indices: 813180--813464 Score: 211
Period size: 70 Copynumber: 4.1 Consensus size: 70
813170 ATGATTAGGC
* * * *** * * * * * *
813180 GCTCTCGTACAAGTCACCCAAAATTAATTATGGTTAGCTTCTCTCGTACGAGTCACTCTAATCCT
1 GCTCCCGTACGAGTCACCCAAAATTAACTATGACGAGGTGCTCCCGTACAAGTCATTATAATCCT
813245 TCAGGG
66 TC-GGG
* * * * ** *
813251 AC-CCCGTACGAGTCATCCAATATTAAATATGATTAGGTGATTCCC-TACAAGTCATTATAATCC
1 GCTCCCGTACGAGTCACCCAAAATTAACTATGACGAGGTG-CTCCCGTACAAGTCATTATAATCC
813314 TTCGGG
65 TTCGGG
* * *
813320 GCTCCCGTACGAGTCACCCAAAATTAACTGTGACGAGGTGCTCCCGTACGAGTCATTCTAAT-CT
1 GCTCCCGTACGAGTCACCCAAAATTAACTATGACGAGGTGCTCCCGTACAAGTCATTATAATCCT
813384 TCGGG
66 TCGGG
* * * ** * * *
813389 GTTCCAC-AATGAGTCACCCAAAATTAACTATGATTAGATGCTCTCGTACGAGTCACTT-TAATC
1 GCTCC-CGTACGAGTCACCCAAAATTAACTATGACGAGGTGCTCCCGTACAAGTCA-TTATAATC
**
813452 CTTCAAG
64 CTTCGGG
813459 GCTCCC
1 GCTCCC
813465 ATTCGATTCA
Statistics
Matches: 173, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
69 65 0.38
70 104 0.60
71 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (70 bp):
GCTCCCGTACGAGTCACCCAAAATTAACTATGACGAGGTGCTCCCGTACAAGTCATTATAATCCT
TCGGG
Found at i:813751 original size:51 final size:51
Alignment explanation
Indices: 813627--813939 Score: 281
Period size: 51 Copynumber: 6.2 Consensus size: 51
813617 CCCAGTTTGT
* * * * * * * * *
813627 ACTTACACCCATAAAATGATCACGTAATTCTAGTAGTGAAACTTAATACAG
1 ACTTACACCGATAAAATCAACACTTAATTCCAGCAATGAAACTTAACATAG
* * * * *
813678 ACTTACACCAATGAGAGT-AACACTTAATTCTAGCAATGAAACTTATCATAG
1 ACTTACACCGAT-AAAATCAACACTTAATTCCAGCAATGAAACTTAACATAG
* * * * *
813729 AATTGCACCGATAAAATCAACACTTAATTCCAACAATAAAACTTAATATAG
1 ACTTACACCGATAAAATCAACACTTAATTCCAGCAATGAAACTTAACATAG
* * *
813780 ACTTACACCGGTGAAATCAACACTTAATTCCACCAATGAAACTTAACATAG
1 ACTTACACCGATAAAATCAACACTTAATTCCAGCAATGAAACTTAACATAG
* * * * * * *
813831 ACTTACATC-AGTGAAATCAACAATTAATTCTAGCATTAAAACTTAACATAC
1 ACTTACACCGA-TAAAATCAACACTTAATTCCAGCAATGAAACTTAACATAG
* * * * *
813882 ACTTACACTG-TAAAATCTACGCTTATTTCCAGCAATGAAAGTTAACATAG
1 ACTTACACCGATAAAATCAACACTTAATTCCAGCAATGAAACTTAACATAG
813932 ACTTACAC
1 ACTTACAC
813940 TAGTGAAACC
Statistics
Matches: 211, Mismatches: 47, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
50 41 0.19
51 167 0.79
52 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (51 bp):
ACTTACACCGATAAAATCAACACTTAATTCCAGCAATGAAACTTAACATAG
Found at i:813953 original size:26 final size:26
Alignment explanation
Indices: 813924--813973 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
813914 CAATGAAAGT
*
813924 TAACATAGACTTACACTAGTGAAACC
1 TAACATAGACTTACACCAGTGAAACC
*
813950 TAACATTGACTTACACCAGTGAAA
1 TAACATAGACTTACACCAGTGAAA
813974 TTGACATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (26 bp):
TAACATAGACTTACACCAGTGAAACC
Found at i:813967 original size:153 final size:153
Alignment explanation
Indices: 813663--813981 Score: 340
Period size: 153 Copynumber: 2.1 Consensus size: 153
813653 ATTCTAGTAG
* * * * * *
813663 TGAAACTTAATACAGACTTACACCAATGAGAGTAACACTTAATTCTAGCAATGAAACTTATCATA
1 TGAAACTTAACATAGACTTACACCAATGAGAATAACAATTAATTCTAGCAATAAAACTTAACATA
* * * *
813728 GAATTGCACCGATAAAATCAACACTTAATTCCAACAATAAAACTTAATATAGACTTACACCGGTG
66 CAATTACACCGATAAAATCAACACTTAATTCCAACAATAAAACTTAACATAGACTTACACCAGTG
* *
813793 AAATCAACACTTAATTCCACCAA
131 AAACCAACACTTAATTACACCAA
* * *
813816 TGAAACTTAACATAGACTTACATCAGTGA-AATCAACAATTAATTCTAGCATTAAAACTTAACAT
1 TGAAACTTAACATAGACTTACACCAATGAGAAT-AACAATTAATTCTAGCAATAAAACTTAACAT
* * * * * * * * *
813880 ACACTTACACTG-TAAAATCTACGCTTATTTCCAGCAATGAAAGTTAACATAGACTTACACTAGT
65 ACAATTACACCGATAAAATCAACACTTAATTCCAACAATAAAACTTAACATAGACTTACACCAGT
* *
813944 GAAACCTAACA-TTGACTTACACCAG
130 GAAACC-AACACTT-AATTACACCAA
*
813969 TGAAA-TTGACATA
1 TGAAACTTAACATA
813982 TAATTCCAAC
Statistics
Matches: 136, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
152 59 0.43
153 77 0.57
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.27
Consensus pattern (153 bp):
TGAAACTTAACATAGACTTACACCAATGAGAATAACAATTAATTCTAGCAATAAAACTTAACATA
CAATTACACCGATAAAATCAACACTTAATTCCAACAATAAAACTTAACATAGACTTACACCAGTG
AAACCAACACTTAATTACACCAA
Found at i:814744 original size:14 final size:14
Alignment explanation
Indices: 814706--814758 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
814696 TTTAAATACC
814706 AAATAT-AATATAT
1 AAATATAAATATAT
*
814719 AAACACTAAATATAT
1 AAATA-TAAATATAT
814734 AAATATAAATACTAT
1 AAATATAAATA-TAT
*
814749 ATA-ATAAATA
1 AAATATAAATA
814759 AAAGTACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.41
15 16 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATATAAATATAT
Found at i:814766 original size:20 final size:20
Alignment explanation
Indices: 814728--814802 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 20
814718 TAAACACTAA
814728 ATAT-ATAAATATAAA-TACT
1 ATATAATAAATA-AAAGTACT
814747 ATATAATAAATAAAAGTACT
1 ATATAATAAATAAAAGTACT
* * * *
814767 ATACAATATATAATATCGTATT
1 ATATAATAAATAA-A-AGTACT
814789 ATATAATATAATAA
1 ATATAATA-AATAA
814803 CACATACTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 7 0.16
20 22 0.49
21 1 0.02
22 11 0.24
23 4 0.09
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATAATAAATAAAAGTACT
Found at i:814878 original size:17 final size:18
Alignment explanation
Indices: 814843--814882 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
814833 TAATATATAT
*
814843 TATAAACATTACATAATA
1 TATAAACATTAAATAATA
*
814861 TATAAA-ATTAAATGATA
1 TATAAACATTAAATAATA
814878 TATAA
1 TATAA
814883 TATGAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (18 bp):
TATAAACATTAAATAATA
Found at i:815054 original size:65 final size:65
Alignment explanation
Indices: 814950--815080 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
814940 GATGTTTCCC
814950 TTGACAAAAAACTGGTTTGACCCCCGAAATCCATTCTTTAATTTAGAGCAACCAACAACAACTCA
1 TTGACAAAAAACTGGTTTGACCCCCGAAATCCATTCTTTAATTTAGAGCAACCAACAACAACTCA
*
815015 TTGACAAAAAACTGGTTTGACCCCCGAAATCCATTCTTTAATTTAGAGCAACCAACAACAGCTCA
1 TTGACAAAAAACTGGTTTGACCCCCGAAATCCATTCTTTAATTTAGAGCAACCAACAACAACTCA
815080 T
1 T
815081 CAACAAATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.25
Consensus pattern (65 bp):
TTGACAAAAAACTGGTTTGACCCCCGAAATCCATTCTTTAATTTAGAGCAACCAACAACAACTCA
Found at i:816079 original size:20 final size:19
Alignment explanation
Indices: 816051--816090 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
816041 TATTAAAATA
816051 CAAAATTTATCAAAACTATT
1 CAAAATTTA-CAAAACTATT
* *
816071 CAAATTTTACCAAACTATT
1 CAAAATTTACAAAACTATT
816090 C
1 C
816091 TTTAAATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAAATTTACAAAACTATT
Found at i:816807 original size:17 final size:17
Alignment explanation
Indices: 816779--816827 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
816769 ATTAATTGAA
816779 TAAAGTTAGTTCATTAAT
1 TAAAG-TAGTTCATTAAT
*
816797 TAAAGTAGTTCATTCAT
1 TAAAGTAGTTCATTAAT
* *
816814 CAAACTAGTTCATT
1 TAAAGTAGTTCATT
816828 TAATAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (17 bp):
TAAAGTAGTTCATTAAT
Found at i:816835 original size:17 final size:16
Alignment explanation
Indices: 816785--816837 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
816775 TGAATAAAGT
*
816785 TAGTTCATTAATTAAAG
1 TAGTTCATTAA-TAAAC
*
816802 TAGTTCATTCATCAAAC
1 TAGTTCATTAAT-AAAC
816819 TAGTTCATTTAATAAAC
1 TAGTTCA-TTAATAAAC
816836 TA
1 TA
816838 ACTCTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 1 0.03
17 26 0.84
18 4 0.13
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (16 bp):
TAGTTCATTAATAAAC
Found at i:818346 original size:8 final size:8
Alignment explanation
Indices: 818333--818378 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
818323 AGGTTAGTAA
818333 AAAAAAAG
1 AAAAAAAG
818341 AAAAAAAG
1 AAAAAAAG
*
818349 AAAAATTTA-
1 AAAAA--AAG
818358 AAAAAAAG
1 AAAAAAAG
818366 AAAAAAAG
1 AAAAAAAG
818374 AAAAA
1 AAAAA
818379 TTTAAAGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 1 0.03
8 26 0.79
9 5 0.15
10 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.07
Consensus pattern (8 bp):
AAAAAAAG
Found at i:818365 original size:25 final size:25
Alignment explanation
Indices: 818332--818384 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
818322 CAGGTTAGTA
818332 AAAAAAAAGAAAAAAAGAAAAATTT
1 AAAAAAAAGAAAAAAAGAAAAATTT
818357 AAAAAAAAGAAAAAAAGAAAAATTT
1 AAAAAAAAGAAAAAAAGAAAAATTT
818382 AAA
1 AAA
818385 GAGGGGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAAGAAAAATTT
Found at i:820511 original size:17 final size:17
Alignment explanation
Indices: 820489--820539 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
820479 AATAAAGTTC
* *
820489 GTTCATTAATTAAAGTA
1 GTTCATTAATCAAACTA
*
820506 GTTCATTCATCAAACTA
1 GTTCATTAATCAAACTA
820523 GTTCATTTAAT-AAACTA
1 GTTCA-TTAATCAAACTA
820540 ACTCTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (17 bp):
GTTCATTAATCAAACTA
Found at i:842221 original size:23 final size:21
Alignment explanation
Indices: 842172--842235 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
842162 TTTTGGTGCA
*
842172 GAGGGAACCGATCCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
842193 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
842214 GAAGGGGAACCGATTCCCCCCA
1 G-A-GGGAACCGATTCCCCCCA
842236 CAGGGGAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 19 0.53
22 1 0.03
23 16 0.44
ACGTcount: A:0.23, C:0.38, G:0.25, T:0.14
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:842242 original size:21 final size:21
Alignment explanation
Indices: 842174--842254 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
842164 TTGGTGCAGA
842174 GGGAACCGA-TCCCCCC-CATG
1 GGGAACCGATTCCCCCCACA-G
*
842194 AGGGAACCGATTCCCCCTTTGA-AG
1 -GGGAACCGATTCCCCC---CACAG
842218 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCACAG
* *
842239 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
842255 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.02
21 25 0.50
22 6 0.12
23 16 0.32
24 1 0.02
25 1 0.02
ACGTcount: A:0.23, C:0.38, G:0.25, T:0.14
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCACAG
Found at i:845801 original size:24 final size:24
Alignment explanation
Indices: 845774--845820 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
845764 CATGACATTA
845774 TACATAGATGTTTTATACATCATG
1 TACATAGATGTTTTATACATCATG
845798 TACATAGATGTTTTATACATCAT
1 TACATAGATGTTTTATACATCAT
845821 CTGGAAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (24 bp):
TACATAGATGTTTTATACATCATG
Found at i:847729 original size:17 final size:16
Alignment explanation
Indices: 847691--847729 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
847681 AATATACTAT
847691 TTTATT-TTAAAAATA
1 TTTATTATTAAAAATA
*
847706 TTAATTATTAAAATATA
1 TTTATTATTAAAA-ATA
847723 TTTATTA
1 TTTATTA
847730 ATAATTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTATTATTAAAAATA
Found at i:847995 original size:26 final size:28
Alignment explanation
Indices: 847928--847998 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
847918 AAAATACAAT
847928 ATAATATTATTATTTTAATATAATTAATA
1 ATAATATT-TTATTTTAATATAATTAATA
847957 ATACAATACTTTTATTTTAATA-AA-TAATTA
1 AT--AATA-TTTTATTTTAATATAATTAA-TA
847987 AT-ATATTTTATT
1 ATAATATTTTATT
847999 ATATTTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
26 7 0.18
27 3 0.08
29 5 0.13
30 6 0.16
31 15 0.39
32 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
ATAATATTTTATTTTAATATAATTAATA
Found at i:848356 original size:20 final size:20
Alignment explanation
Indices: 848319--848362 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
848309 AAATCATTTC
848319 ATAAAATTTATTATCT-AAT
1 ATAAAATTTATTATCTAAAT
848338 ATAAATATTTATT-TACTAAAT
1 ATAAA-ATTTATTAT-CTAAAT
848359 ATAA
1 ATAA
848363 TTAATCGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAATTTATTATCTAAAT
Found at i:849115 original size:29 final size:30
Alignment explanation
Indices: 849061--849122 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
849051 TAAAATGTTT
* *
849061 TTTAAATTCAAATTTAATTATTAATTTAAA
1 TTTAAATTCAAATCTAATTATAAATTTAAA
*
849091 TTTAAA-TCAATATCTAA-TATAAATTTATA
1 TTTAAATTCAA-ATCTAATTATAAATTTAAA
849120 TTT
1 TTT
849123 TACTAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTAAATTCAAATCTAATTATAAATTTAAA
Found at i:852496 original size:20 final size:20
Alignment explanation
Indices: 852459--852515 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
852449 TTTTATATAA
* * *
852459 AATTTCATTCAATCGTTTTC
1 AATTTCTTTAAATTGTTTTC
*
852479 AA-TTCTTTAAATGTGTTTTT
1 AATTTCTTTAAAT-TGTTTTC
*
852499 AATTTTTTTAAATTGTT
1 AATTTCTTTAAATTGTT
852516 AGATAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.27
20 13 0.43
21 9 0.30
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (20 bp):
AATTTCTTTAAATTGTTTTC
Found at i:852766 original size:3 final size:3
Alignment explanation
Indices: 852758--852857 Score: 105
Period size: 3 Copynumber: 34.0 Consensus size: 3
852748 ATGACTTGAA
* * *
852758 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AG AAT AAG AAT AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
852805 AAG AAT AAG AAT AAG AAT AAG AAT AAT AA- ATT AAT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
852852 AAT AAT
1 AAT AAT
852858 GATGACGACG
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:853782 original size:16 final size:16
Alignment explanation
Indices: 853761--853815 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
853751 GGTATTACCC
*
853761 GACCTGTTTTCAACCT
1 GACCTGTTTTTAACCT
853777 GACCTGTTTTTAACCT
1 GACCTGTTTTTAACCT
*
853793 GACTTGTTTTTAACCT
1 GACCTGTTTTTAACCT
853809 GACCTGT
1 GACCTGT
853816 AAATGATCCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (16 bp):
GACCTGTTTTTAACCT
Found at i:854107 original size:14 final size:14
Alignment explanation
Indices: 854085--854131 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
854075 TGCAAAGGAA
*
854085 AATTAATATAGTTT
1 AATTTATATAGTTT
854099 AATTTATATA----
1 AATTTATATAGTTT
854109 AA-TTATATAGTTT
1 AATTTATATAGTTT
854122 AATTTATATA
1 AATTTATATA
854132 AAGAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:854118 original size:23 final size:24
Alignment explanation
Indices: 854084--854133 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
854074 ATGCAAAGGA
854084 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
854108 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
854131 AAA
1 AAA
854134 GAAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:854324 original size:21 final size:21
Alignment explanation
Indices: 854298--854367 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
854288 CATTTATACG
*
854298 AGGGTTTATGGTGTAAGGTTT
1 AGGGTTTATGGTTTAAGGTTT
* *
854319 AGGGTTTATGATTTAGGGTTT
1 AGGGTTTATGGTTTAAGGTTT
* * *
854340 ATGATTTAGGGTTTAAGGTTT
1 AGGGTTTATGGTTTAAGGTTT
*
854361 AAGGTTT
1 AGGGTTT
854368 CTATAAACTA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (21 bp):
AGGGTTTATGGTTTAAGGTTT
Found at i:854326 original size:7 final size:7
Alignment explanation
Indices: 854298--854367 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
854288 CATTTATACG
854298 AGGGTTT
1 AGGGTTT
* *
854305 ATGGTGT
1 AGGGTTT
*
854312 AAGGTTT
1 AGGGTTT
854319 AGGGTTT
1 AGGGTTT
* *
854326 ATGATTT
1 AGGGTTT
854333 AGGGTTT
1 AGGGTTT
* *
854340 ATGATTT
1 AGGGTTT
854347 AGGGTTT
1 AGGGTTT
*
854354 AAGGTTT
1 AGGGTTT
*
854361 AAGGTTT
1 AGGGTTT
854368 CTATAAACTA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
AGGGTTT
Found at i:854333 original size:14 final size:14
Alignment explanation
Indices: 854316--854354 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
854306 TGGTGTAAGG
854316 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
854330 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
854344 TTTAGGGTTTA
1 TTTAGGGTTTA
854355 AGGTTTAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:854361 original size:14 final size:14
Alignment explanation
Indices: 854300--854367 Score: 73
Period size: 14 Copynumber: 4.9 Consensus size: 14
854290 TTTATACGAG
* *
854300 GGTTTATGGTGTAA
1 GGTTTAGGGTTTAA
*
854314 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAA
* *
854328 GATTTAGGGTTTAT
1 GGTTTAGGGTTTAA
*
854342 GATTTAGGGTTTAA
1 GGTTTAGGGTTTAA
*
854356 GGTTTAAGGTTT
1 GGTTTAGGGTTT
854368 CTATAAACTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:856482 original size:46 final size:46
Alignment explanation
Indices: 856087--856472 Score: 583
Period size: 46 Copynumber: 8.4 Consensus size: 46
856077 TAATATACCG
* * * *
856087 TTATGCATTTTCATTTGTGGCATCCTTTCATGTCGATTATGCACTA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
856133 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
*
856179 TTATGCATTTTCATTTATGGTATCCTTTCATGCCGATAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
** * * * *
856225 TTATAAATTTTCATTTATGACATCCTTTCATGCCGATAAAGCGCCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
* * *
856271 TTATGCATTTTAATTTATGGCATCCTTTCGTGCCGATAATGCACCT
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
* *
856317 TTATGCATTCTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
* *
856363 TTATACATTTTCATTTATGGCATCCTTTCATGCCGAAAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
* * *
856409 TTATGCATTTTCATATATGGCATCATTTCATGCCGATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
856455 TTATGCATTTTCATTTAT
1 TTATGCATTTTCATTTAT
856473 TCATTCATTT
Statistics
Matches: 306, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 306 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (46 bp):
TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
Found at i:862308 original size:46 final size:46
Alignment explanation
Indices: 862262--862604 Score: 479
Period size: 46 Copynumber: 7.5 Consensus size: 46
862252 CATTAATACG
* * * * *
862262 CCGTTATGCATTTTCATTTGTGGCAACCTTTCATGCCAATAATACG
1 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
* * *
862308 CTGTTATGCATTCTCATTTATGGCATCCTTTCATGTCGATAATGCA
1 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
862354 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
1 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
* **
862400 CCGTTATGCATTTTTATTTATGAAATCCTTTCATGCCGATAATGCA
1 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
* * * * * *
862446 CCATTATGCATTCTCATTTACGACATCCTTTCATGTCGATAATGTA
1 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
*
862492 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGATAATGCA
1 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
* * * * *
862538 TCGTTATTCATTTTCATTTATGTCATCCTTTCATGGCGATAATGTA
1 CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
862584 CCGTTATGCATTTTCATTTAT
1 CCGTTATGCATTTTCATTTAT
862605 TCATTAATTT
Statistics
Matches: 261, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 261 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
CCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
Found at i:862570 original size:23 final size:22
Alignment explanation
Indices: 862500--862571 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 22
862490 TACCGTTATG
862500 CATTTTCATTTATGGCATCCTTT
1 CATTTTCATTTAT-GCATCCTTT
** * * *
862523 CATGCTGA-TAATGCATCGTTATT
1 CATTTTCATTTATGCATC-CT-TT
862546 CATTTTCATTTATGTCATCCTTT
1 CATTTTCATTTATG-CATCCTTT
862569 CAT
1 CAT
862572 GGCGATAATG
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
21 5 0.14
22 4 0.11
23 17 0.49
24 5 0.14
25 4 0.11
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (22 bp):
CATTTTCATTTATGCATCCTTT
Found at i:866960 original size:165 final size:167
Alignment explanation
Indices: 866688--867021 Score: 654
Period size: 165 Copynumber: 2.0 Consensus size: 167
866678 TCCTCTTCGT
866688 ACAGTCATGAATTTGCTCAAAAGTTATCTTCCCAACATCAATCACTCGCCCGTAAATGATCGAAT
1 ACAGTCATGAATTTGCTCAAAAGTTATCTTCCCAACATCAATCACTCGCCCGTAAATGATCGAAT
866753 GTAGAAGTATCAATCGTTTCATCAATATTGTTGAGTTGTGGGAAGTAGGCA-CAGCTTGCCTTTC
66 GTAGAAGTATCAATCGTTTCATCAATATTGTTGAGTTGTGGGAAGTAGGCATCAGCTTGCCTTTC
866817 AAGAAAGGATTACAGAGATTTGTAA-TGGTTTAAGGG
131 AAGAAAGGATTACAGAGATTTGTAATTGGTTTAAGGG
866853 ACAGTCATGAATTTGCTCAAAAGTTATCTTCCCAACATCAATCACTCGCCCGTAAATGATCGAAT
1 ACAGTCATGAATTTGCTCAAAAGTTATCTTCCCAACATCAATCACTCGCCCGTAAATGATCGAAT
866918 GTAGAAGTATCAATCGTTTCATCAATATTGTTGAGTTGTGGGAAGTAGGCATCAGCTTGCCTTTC
66 GTAGAAGTATCAATCGTTTCATCAATATTGTTGAGTTGTGGGAAGTAGGCATCAGCTTGCCTTTC
866983 AAGAAAGGATTACAGAGATTTGTAATTGGTTTAAGGG
131 AAGAAAGGATTACAGAGATTTGTAATTGGTTTAAGGG
867020 AC
1 AC
867022 CGCGAATCAT
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
165 116 0.69
166 38 0.23
167 13 0.08
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (167 bp):
ACAGTCATGAATTTGCTCAAAAGTTATCTTCCCAACATCAATCACTCGCCCGTAAATGATCGAAT
GTAGAAGTATCAATCGTTTCATCAATATTGTTGAGTTGTGGGAAGTAGGCATCAGCTTGCCTTTC
AAGAAAGGATTACAGAGATTTGTAATTGGTTTAAGGG
Found at i:877507 original size:46 final size:46
Alignment explanation
Indices: 877451--877578 Score: 159
Period size: 48 Copynumber: 2.8 Consensus size: 46
877441 TAACACATAT
*
877451 ATTT-ATGCATTTTAATTATGGCATCTTTTTATGCCTTAATGCATC
1 ATTTCATGCATTTTAATTATGGCATCTTTTCATGCCTTAATGCATC
* * *
877496 ATTTCATGCATTTTAAAATTTTGGCATCCTTACATGCCTTAATGCATC
1 ATTTCATGCATTTT--AATTATGGCATCTTTTCATGCCTTAATGCATC
* * * *
877544 CTTTCATGTATTTAAATTATGACATCTTTTCATGC
1 ATTTCATGCATTTTAATTATGGCATCTTTTCATGC
877579 ATTTTAAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 4 0.06
46 26 0.38
48 39 0.57
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (46 bp):
ATTTCATGCATTTTAATTATGGCATCTTTTCATGCCTTAATGCATC
Found at i:877576 original size:26 final size:27
Alignment explanation
Indices: 877540--877685 Score: 133
Period size: 27 Copynumber: 6.0 Consensus size: 27
877530 TGCCTTAATG
*
877540 CATCCTTTCATGTA-TTTAAATTATGA
1 CATCCTTTCATGCATTTTAAATTATGA
* *
877566 CATCTTTTCATGCATTTTAAATTATGG
1 CATCCTTTCATGCATTTTAAATTATGA
* *
877593 CTTCCTTTCATGC--CTT--A--ATG-
1 CATCCTTTCATGCATTTTAAATTATGA
877613 CATCCTTTCATGCATTTTAAATTATGA
1 CATCCTTTCATGCATTTTAAATTATGA
*
877640 CATCCTTTCATGC--CTT--A--ATG-
1 CATCCTTTCATGCATTTTAAATTATGA
877660 CATCCTTTCATGCATTTTAAATTATG
1 CATCCTTTCATGCATTTTAAATTATG
877686 TATCCGATTT
Statistics
Matches: 96, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
20 25 0.26
21 6 0.06
22 4 0.04
23 2 0.02
24 2 0.02
25 4 0.04
26 18 0.19
27 35 0.36
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (27 bp):
CATCCTTTCATGCATTTTAAATTATGA
Found at i:877606 original size:73 final size:75
Alignment explanation
Indices: 877492--877652 Score: 254
Period size: 74 Copynumber: 2.2 Consensus size: 75
877482 TGCCTTAATG
* *
877492 CATCATTTCATGCATTTTAAAATTTTGGCATCCTTACATGCCTTAATGCATCCTTTCATGTA-TT
1 CATCATTTCATGCATTTTAAAATTATGGCATCCTTACATGCCTTAATGCATCCTTTCATGCATTT
877556 TAAATTATGA
66 TAAATTATGA
* * *
877566 CATCTTTTCATGCATTTT-AAATTATGGCTTCCTTTCATGCCTTAATGCATCCTTTCATGCATTT
1 CATCATTTCATGCATTTTAAAATTATGGCATCCTTACATGCCTTAATGCATCCTTTCATGCATTT
877630 TAAATTATGA
66 TAAATTATGA
*
877640 CATCCTTTCATGC
1 CATCATTTCATGC
877653 CTTAATGCAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
73 39 0.49
74 41 0.51
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.44
Consensus pattern (75 bp):
CATCATTTCATGCATTTTAAAATTATGGCATCCTTACATGCCTTAATGCATCCTTTCATGCATTT
TAAATTATGA
Found at i:877620 original size:20 final size:20
Alignment explanation
Indices: 877595--877672 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
877585 AATTATGGCT
877595 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
*
877615 TCCTTTCATGCATTTTAAATTATGACA
1 TCCTTTCATGC--CTT--A--ATG-CA
877642 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
877662 TCCTTTCATGC
1 TCCTTTCATGC
877673 ATTTTAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
20 24 0.49
21 3 0.06
22 2 0.04
23 1 0.02
24 1 0.02
25 2 0.04
26 3 0.06
27 13 0.27
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.42
Consensus pattern (20 bp):
TCCTTTCATGCCTTAATGCA
Found at i:877646 original size:47 final size:47
Alignment explanation
Indices: 877566--877685 Score: 213
Period size: 47 Copynumber: 2.6 Consensus size: 47
877556 TAAATTATGA
* * *
877566 CATCTTTTCATGCATTTTAAATTATGGCTTCCTTTCATGCCTTAATG
1 CATCCTTTCATGCATTTTAAATTATGACATCCTTTCATGCCTTAATG
877613 CATCCTTTCATGCATTTTAAATTATGACATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCATTTTAAATTATGACATCCTTTCATGCCTTAATG
877660 CATCCTTTCATGCATTTTAAATTATG
1 CATCCTTTCATGCATTTTAAATTATG
877686 TATCCGATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (47 bp):
CATCCTTTCATGCATTTTAAATTATGACATCCTTTCATGCCTTAATG
Found at i:877668 original size:120 final size:121
Alignment explanation
Indices: 877455--877685 Score: 367
Period size: 121 Copynumber: 1.9 Consensus size: 121
877445 ACATATATTT
* * * *
877455 ATGCATTTTAATTATGGCATCTTTTTATGCCTTAATGCATCATTTCATGCATTTTAAAATTTTGG
1 ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAAAATTATGA
*
877520 CATCCTTACATGCCTTAATGCATCCTTTCATGTA-TTTAAATTATGACATCTTTTC
66 CATCCTTACATGCCTTAATGCATCCTTTCATGCATTTTAAATTATGACATCTTTTC
* *
877575 ATGCATTTTAAATTATGGCTTCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT-AAATTATG
1 ATGCATTTT-AATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAAAATTATG
*
877639 ACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAAATTATG
65 ACATCCTTACATGCCTTAATGCATCCTTTCATGCATTTTAAATTATG
877686 TATCCGATTT
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
120 48 0.48
121 53 0.52
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (121 bp):
ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAAAATTATGA
CATCCTTACATGCCTTAATGCATCCTTTCATGCATTTTAAATTATGACATCTTTTC
Found at i:883152 original size:18 final size:18
Alignment explanation
Indices: 883129--883182 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
883119 TTCATACATC
883129 TAGTTCATTGAATAAACT
1 TAGTTCATTGAATAAACT
**
883147 TAGTTCATTGAATAATGT
1 TAGTTCATTGAATAAACT
883165 TAGTTCATT-AATCAAACT
1 TAGTTCATTGAAT-AAACT
883183 AAATCTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TAGTTCATTGAATAAACT
Found at i:886357 original size:20 final size:20
Alignment explanation
Indices: 886328--886475 Score: 107
Period size: 20 Copynumber: 6.7 Consensus size: 20
886318 TAAAATATTA
*
886328 GCATCTTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
886348 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* * *
886368 ACATCTTTTCATGCATTTTAAATTAT
1 GCATCCTTTCATGC--CTT--A--AT
886394 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
886415 GCATCCTTTCATACATTTTAAATTAT
1 GCATCCTTTCATGC--CTT--A--AT
*
886441 GGCATACTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
886462 GCATCCTTTCATGC
1 GCATCCTTTCATGC
886476 ATTTTAAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
20 57 0.56
21 4 0.04
22 4 0.04
23 2 0.02
24 2 0.02
25 4 0.04
26 4 0.04
27 24 0.24
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:886424 original size:67 final size:68
Alignment explanation
Indices: 886280--886426 Score: 224
Period size: 68 Copynumber: 2.2 Consensus size: 68
886270 TTTAATTATG
* * * *
886280 GCATCCTTTTATGCCTTAATGCATCCTTTCATGTATTTTAAAATATTAGCATCTTTTCATGCCTT
1 GCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTAAAATATTAGCATCCTTTCATGCCTT
886345 AAT
66 AAT
* * *
886348 GCATCCTTTCATGCCTTAATACATCTTTTCATGCATTTTAAATTA-TGGCATCCTTTCATGCCTT
1 GCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTAAAATATTAGCATCCTTTCATGCCTT
886412 AAT
66 AAT
886415 GCATCCTTTCAT
1 GCATCCTTTCAT
886427 ACATTTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 32 0.44
68 40 0.56
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (68 bp):
GCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTAAAATATTAGCATCCTTTCATGCCTT
AAT
Found at i:886425 original size:47 final size:47
Alignment explanation
Indices: 886348--886489 Score: 248
Period size: 47 Copynumber: 3.0 Consensus size: 47
886338 ATGCCTTAAT
* *
886348 GCATCCTTTCATGCCTTAATACATCTTTTCATGCATTTTAAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAAATTATG
*
886395 GCATCCTTTCATGCCTTAATGCATCCTTTCATACATTTTAAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAAATTATG
*
886442 GCATACTTTCATGCCTTAATGCATCCTTTCATGCATTTTAAATTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAAATTATG
886489 G
1 G
886490 ATTCGATTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (47 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAAATTATG
Found at i:891061 original size:21 final size:21
Alignment explanation
Indices: 891035--891083 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
891025 CATAGAAGTG
* *
891035 CCACATATTCGTCCCGGAGGA
1 CCACATATTCATCCCGAAGGA
*
891056 CCACATATTTATCCCGAAGGA
1 CCACATATTCATCCCGAAGGA
*
891077 CAACATA
1 CCACATA
891084 AGACCCTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (21 bp):
CCACATATTCATCCCGAAGGA
Found at i:891243 original size:21 final size:21
Alignment explanation
Indices: 891217--891309 Score: 159
Period size: 21 Copynumber: 4.4 Consensus size: 21
891207 CATAGAGTTT
*
891217 GTTCACATTCACTGGTTCAAA
1 GTTCACATTCACTTGTTCAAA
891238 GTTCACATTCACTTGTTCAAA
1 GTTCACATTCACTTGTTCAAA
891259 GTTCACATTCACTTGTTCAAA
1 GTTCACATTCACTTGTTCAAA
* *
891280 GTTTACATTCACTTATTCAAA
1 GTTCACATTCACTTGTTCAAA
891301 GTTCACATT
1 GTTCACATT
891310 TCCATAACAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (21 bp):
GTTCACATTCACTTGTTCAAA
Found at i:891378 original size:43 final size:43
Alignment explanation
Indices: 891330--891421 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
891320 ATAATCATAA
891330 AACATAGTTTTTATAATAGAAATTTAATAAAACATTGAAATAT
1 AACATAGTTTTTATAATAGAAATTTAATAAAACATTGAAATAT
891373 AACATAGTTTTTATAATAGAAATTTAATAAAACATTGAAATAT
1 AACATAGTTTTTATAATAGAAATTTAATAAAACATTGAAATAT
891416 AACATA
1 AACATA
891422 AAATAAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (43 bp):
AACATAGTTTTTATAATAGAAATTTAATAAAACATTGAAATAT
Found at i:891750 original size:22 final size:20
Alignment explanation
Indices: 891701--891752 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
891691 ATGCTTGGAA
* *
891701 GTATCGGTACTACCCTAATG
1 GTATCGATACTACCCTAAGG
*
891721 GTACCGATACTACCCTTCAAGG
1 GTATCGATACTACCC-T-AAGG
891743 GTATCGATAC
1 GTATCGATAC
891753 CTTCTTATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 13 0.50
21 1 0.04
22 12 0.46
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (20 bp):
GTATCGATACTACCCTAAGG
Found at i:891801 original size:54 final size:54
Alignment explanation
Indices: 891736--891879 Score: 157
Period size: 54 Copynumber: 2.6 Consensus size: 54
891726 GATACTACCC
* * * *
891736 TTCAAGGGTATCGATACCTTCTTATGGTACCGATACCGAA-ATAACATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATAAC-AATATAACATTCGATGT
* * **
891790 TTCAATGGTATCGATACCTCCTCAAGGTACCGATAACAATCTGGCATTCGATGT
1 TTCAAGGGTATCGATACCTCCTCAAGGTACCGATAACAATATAACATTCGATGT
* *
891844 TTTAAGGGTATCGATACCATCCTTC-AGGTATCGATA
1 TTCAAGGGTATCGATACC-TCC-TCAAGGTACCGATA
891880 CTACCCTTAC
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.03
54 59 0.78
55 13 0.17
56 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCTCCTCAAGGTACCGATAACAATATAACATTCGATGT
Found at i:891875 original size:20 final size:21
Alignment explanation
Indices: 891850--891903 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
891840 ATGTTTTAAG
*
891850 GGTATCGATACCATCCTT-CA
1 GGTATCGATACCACCCTTACA
*
891870 GGTATCGATACTACCCTTACA
1 GGTATCGATACCACCCTTACA
*
891891 -GTATCAATACCAC
1 GGTATCGATACCAC
891904 TATCAATAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (21 bp):
GGTATCGATACCACCCTTACA
Found at i:897608 original size:14 final size:14
Alignment explanation
Indices: 897589--897622 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
897579 CTTTTTTCAA
*
897589 TTTTTTTCCTTTTG
1 TTTTTTTCCTTTTC
*
897603 TTTTTTTCTTTTTC
1 TTTTTTTCCTTTTC
897617 TTTTTT
1 TTTTTT
897623 ATTTTTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTTTCCTTTTC
Found at i:898487 original size:51 final size:51
Alignment explanation
Indices: 898422--898537 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
898412 CATGACTAAT
* * *
898422 TAATAGAATAATAATAAACTAA-AGA-TATTGTTTTAA-TTCTATCCTAATTCC
1 TAATAAAATAATAATAAACTAAGA-ATTA-TGTTTTAACTT-GATCCTAATTCA
*
898473 TAATAAAATAATAATAAACTAAGAATTATGTTTTAACTTGATCTTAATTCA
1 TAATAAAATAATAATAAACTAAGAATTATGTTTTAACTTGATCCTAATTCA
898524 TAATAAAATAATAA
1 TAATAAAATAATAA
898538 ATCTAATTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
51 53 0.91
52 5 0.09
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (51 bp):
TAATAAAATAATAATAAACTAAGAATTATGTTTTAACTTGATCCTAATTCA
Found at i:903572 original size:35 final size:35
Alignment explanation
Indices: 903521--903596 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
903511 AAGGTTTATT
* *
903521 GTGATACATAAGAATGACATGTAAACTGCATATAA
1 GTGATACACAAAAATGACATGTAAACTGCATATAA
*
903556 GTGATACACAAAAATGACATGTAAATTGCATATAA
1 GTGATACACAAAAATGACATGTAAACTGCATATAA
903591 GTGATA
1 GTGATA
903597 AATCATGGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (35 bp):
GTGATACACAAAAATGACATGTAAACTGCATATAA
Found at i:904396 original size:20 final size:20
Alignment explanation
Indices: 904371--904409 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
904361 GGTCTACGCG
*
904371 ATCCTTTGGGACATATATGT
1 ATCCTTTGGAACATATATGT
*
904391 ATCCTTTGGAACATCTATG
1 ATCCTTTGGAACATATATG
904410 AGGTCCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (20 bp):
ATCCTTTGGAACATATATGT
Found at i:907645 original size:51 final size:51
Alignment explanation
Indices: 907588--907694 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
907578 AAGGATATAA
* * *
907588 GTAAAGAATTTTAATATTGGATTAAATAGCAAATATGGATGAATTAAAGGG
1 GTAAAGAATTTTAATATTGGATTAAATAGCAAAGATGAACGAATTAAAGGG
*
907639 GTAAAGAATTTTAATATTGGATTAAATAGCAAAGATGAACGAATTAAAGTG
1 GTAAAGAATTTTAATATTGGATTAAATAGCAAAGATGAACGAATTAAAGGG
907690 GTAAA
1 GTAAA
907695 ATGGTCTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.47, C:0.03, G:0.21, T:0.30
Consensus pattern (51 bp):
GTAAAGAATTTTAATATTGGATTAAATAGCAAAGATGAACGAATTAAAGGG
Found at i:908340 original size:14 final size:14
Alignment explanation
Indices: 908320--908360 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
908310 ACTGTTGCAT
908320 AGTGCATCGATACC
1 AGTGCATCGATACC
* *
908334 CGTGCATTGATACC
1 AGTGCATCGATACC
908348 AGTGCATCGATAC
1 AGTGCATCGATAC
908361 ACACTGGCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (14 bp):
AGTGCATCGATACC
Found at i:909886 original size:23 final size:23
Alignment explanation
Indices: 909859--909926 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
909849 CATTTTATAT
*
909859 GGCACTACGATGCATTTCTACGC
1 GGCACTTCGATGCATTTCTACGC
* * * * *
909882 GGCACTTTGGTGCAATCCTACGT
1 GGCACTTCGATGCATTTCTACGC
*
909905 GGCACTTCGATGCATTTATACG
1 GGCACTTCGATGCATTTCTACG
909927 AGCTGTGGTG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (23 bp):
GGCACTTCGATGCATTTCTACGC
Found at i:910308 original size:7 final size:7
Alignment explanation
Indices: 910296--910327 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
910286 GTGTGCATGG
910296 TAGAAAT
1 TAGAAAT
910303 TAGAAAT
1 TAGAAAT
910310 TAGAAAT
1 TAGAAAT
*
910317 TAGAATT
1 TAGAAAT
910324 TAGA
1 TAGA
910328 TTTTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (7 bp):
TAGAAAT
Found at i:916752 original size:130 final size:131
Alignment explanation
Indices: 916420--916786 Score: 483
Period size: 131 Copynumber: 2.8 Consensus size: 131
916410 TAATTTTAAA
* **
916420 AGAGAAAACGATAATATTTAATTATTTGTAATCGAGAATAAATGATCTTC-CATGCCTTAAAACA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGA-CTTCTCATGCCTTAAAACA
* * * * *
916484 ATCATTTATTACCCCAATTGAAATAGAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATT
65 ATCATTTATTACTCCAATCGAAATAGAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACT
*
916549 TG
130 CG
* * *
916551 AGTGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAACAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAACAA
* *
916616 TCATTTATTACTTCAATCGAAAT-GA-AGCTATATCATTATTCCGTCTTAAAAATCAATATTGAC
66 TCATTTATTACTCCAATCGAAATAGAGAG--ATATCACTATTCCGTCTTAAAAATCAATATTGAC
916679 TCG
129 TCG
* * *
916682 AGAG-AAACGATAATATCTGATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGCAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAACAA
* *
916746 TCATTTATTACTCCAACCGAAA-AGAGGGAGATATTACTATT
66 TCATTTATTACTCCAATCGAAATAGA--GAGATATCACTATT
916787 TTCAATATCG
Statistics
Matches: 205, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
129 2 0.01
130 83 0.40
131 118 0.58
133 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (131 bp):
AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACTTCTCATGCCTTAAAACAA
TCATTTATTACTCCAATCGAAATAGAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACTC
G
Found at i:919665 original size:132 final size:132
Alignment explanation
Indices: 919098--919806 Score: 839
Period size: 132 Copynumber: 5.3 Consensus size: 132
919088 TATACAAACA
* * * * * * *
919098 TTGATTCATTCCACTGTTCTTCAGGGAAGATTAAATAGAGGTAGACTTGCTCCATTGCTACTCAA
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTC-A
* * * * *
919163 GGAAA-ATCTAATATGGAAAAAAGAAGGATATGTTCCGCTGCTTCTTGAGGGAAAATCAGATCTG
65 GGAAAGATCAAATCT-GAAAAAAG--GGATTTGTTCCACTGCTTCTTGAGGGAAAATCATATCTG
*
919227 AAAATG
127 GAAATG
* * *
919233 TTGATTAATTCAACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTTCCTCAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTCAG
* * * *
919298 GGAAGATCAAATCGAGAAAAAGAGGGATTT-TTCCACTACTTCTTGAGGGAAAATCAGATCTGGA
66 GAAAGATCAAATC-TGAAAAA-AGGGATTTGTTCCACTGCTTCTTGAGGGAAAATCATATCTGGA
919362 AATG
129 AATG
* * * * * *
919366 TTGATTCATTCCATTTTTCTGCAGGGAAGATTGAATCAAGGAAGACTTGTTCCACTGTTCCTCAA
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTCAG
* * * **
919431 GAAAGATCAAATCTGGAGAGAATGAGGGATTTGTTCCATTGCTTCTTGTTGGGAAAATTTTATCT
66 GAAAGATCAAATCT-GA-A-AA-AAGGGATTTGTTCCACTGCTTCTTG-AGGGAAAATCATATCT
919496 GGAAATG
126 GGAAATG
* * * * * *
919503 TAT-ATTCCTTCCACTGTTATTCAGGGGAGATTGAATTGAGGCAGACTTGTTCTACTATTCCTCA
1 T-TGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTCA
*
919567 GGAAAGATCAAATCTGAAAAAAGGGATTTGTTCCATTGCTTCTTGAGGGAAAATCATATCTGGAA
65 GGAAAGATCAAATCTGAAAAAAGGGATTTGTTCCACTGCTTCTTGAGGGAAAATCATATCTGGAA
919632 ATG
130 ATG
* * * * * * * *
919635 TTGATTCATTCCATTGTTATTCAGGGGAGATTAAATTGAGGCGGATTTGTTCCACTGTTCCTTAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTCAG
* * * *
919700 GGAAGATCAAATCTGAAAAGAGGGATCTGTTCCGCTGCTTCTTGAGGGAAAATCATATCTGGAAA
66 GAAAGATCAAATCTGAAAAAAGGGATTTGTTCCACTGCTTCTTGAGGGAAAATCATATCTGGAAA
919765 TG
131 TG
919767 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
919807 TTTGATTCGC
Statistics
Matches: 493, Mismatches: 70, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.00
132 172 0.35
133 129 0.26
134 13 0.03
135 76 0.15
136 17 0.03
137 84 0.17
138 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (132 bp):
TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTCAG
GAAAGATCAAATCTGAAAAAAGGGATTTGTTCCACTGCTTCTTGAGGGAAAATCATATCTGGAAA
TG
Found at i:919687 original size:269 final size:266
Alignment explanation
Indices: 919098--919806 Score: 899
Period size: 269 Copynumber: 2.7 Consensus size: 266
919088 TATACAAACA
* * * * * *
919098 TTGATTCATTCCACTGTTCTTCAGGGAAGATTAAATAGAGGTAGACTTGCTCCATTGCTACTCAA
1 TTGATTCATTCCATTGTTCTTCAGGGAAGATTAAATAGAGGAAGACTTGTTCCACTGTTCCTCAA
* * * *
919163 GGAAA-ATCTAATATGGAAAAAAGAAGGATATGTTCCGCTGCTTCTTGAGGGAAAATCAGATCTG
66 -GAAAGATCAAATCTGG--AAAAGAGGGATATGTTCCGCTGCTTCTTGAGGGAAAATCATATCTG
* * * *
919227 AAAATGTTGATTAATTCAACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTTTT
128 GAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATT
*
919292 CCTCAGGGAAGATCAAATCGAGAAAAAGAGGGATTTTTCCACTACTTCTTGAGGGAAAATCAGAT
193 CCTCAGGAAAGATCAAATCGAGAAAAAGAGGGATTTTTCCACTACTTCTTGAGGGAAAATCAGAT
919357 CTGGAAATG
258 CTGGAAATG
* * *
919366 TTGATTCATTCCATTTTTCTGCAGGGAAGATTGAATCA-AGGAAGACTTGTTCCACTGTTCCTCA
1 TTGATTCATTCCATTGTTCTTCAGGGAAGATTAAAT-AGAGGAAGACTTGTTCCACTGTTCCTCA
* ** * **
919430 AGAAAGATCAAATCTGGAGAGAATGAGGGATTTGTTCCATTGCTTCTTGTTGGGAAAATTTTATC
65 AGAAAGATCAAATCTGGA-A-AA-GAGGGATATGTTCCGCTGCTTCTTG-AGGGAAAATCATATC
* * * * *
919495 TGGAAATGTAT-ATTCCTTCCACTGTTATTCAGGGGAGATTGAATTGAGGCAGACTTGTTCTACT
126 TGGAAATGT-TGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACT
* * *
919559 ATTCCTCAGGAAAGATCAAATC-TGAAAAA-AGGGATTTGTTCCATTGCTTCTTGAGGGAAAATC
190 ATTCCTCAGGAAAGATCAAATCGAGAAAAAGAGGGATTT-TTCCACTACTTCTTGAGGGAAAATC
*
919622 ATATCTGGAAATG
254 AGATCTGGAAATG
* * * ** * * *
919635 TTGATTCATTCCATTGTTATTCAGGGGAGATTAAATTGAGGCGGATTTGTTCCACTGTTCCTTAG
1 TTGATTCATTCCATTGTTCTTCAGGGAAGATTAAATAGAGGAAGACTTGTTCCACTGTTCCTCAA
* *
919700 GGAAGATCAAATCT-GAAAAGAGGGATCTGTTCCGCTGCTTCTTGAGGGAAAATCATATCTGGAA
66 GAAAGATCAAATCTGGAAAAGAGGGATATGTTCCGCTGCTTCTTGAGGGAAAATCATATCTGGAA
919764 ATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
131 ATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
919807 TTTGATTCGC
Statistics
Matches: 376, Mismatches: 55, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
263 1 0.00
264 54 0.14
265 22 0.06
266 3 0.01
267 6 0.02
268 75 0.20
269 129 0.34
270 85 0.23
271 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (266 bp):
TTGATTCATTCCATTGTTCTTCAGGGAAGATTAAATAGAGGAAGACTTGTTCCACTGTTCCTCAA
GAAAGATCAAATCTGGAAAAGAGGGATATGTTCCGCTGCTTCTTGAGGGAAAATCATATCTGGAA
ATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTCCT
CAGGAAAGATCAAATCGAGAAAAAGAGGGATTTTTCCACTACTTCTTGAGGGAAAATCAGATCTG
GAAATG
Found at i:919794 original size:45 final size:44
Alignment explanation
Indices: 919597--919794 Score: 109
Period size: 45 Copynumber: 4.5 Consensus size: 44
919587 AAGGGATTTG
* * * *
919597 TTCCATTGCTTCTTGAGGGAAAATCATATCTGGAAATGTTGATTCA
1 TTCCACTG-TTCTTCAGGGAAAATCAAATCT-GAAATGTGGATTCA
* * * * * * * **
919643 TTCCATTGTTATTCAGGGGAGATTAAAT-TG--AGGCGGATTTG
1 TTCCACTGTTCTTCAGGGAAAATCAAATCTGAAATGTGGATTCA
* * * *
919684 TTCCACTGTTCCTT-AGGGAAGATCAAATCTGAAAAGAGGGA-TCTG
1 TTCCACTGTT-CTTCAGGGAAAATCAAATCTGAAATG-TGGATTC-A
* * * *
919729 TTCCGCTGCTTCTTGAGGGAAAATCATATCTGGAAATGTTGATTCA
1 TTCCACTG-TTCTTCAGGGAAAATCAAATCT-GAAATGTGGATTCA
919775 TTCCACTGTTCTTCAGGGAA
1 TTCCACTGTTCTTCAGGGAA
919795 GATTGAATCG
Statistics
Matches: 115, Mismatches: 27, Indels: 21
0.71 0.17 0.13
Matches are distributed among these distances:
41 27 0.23
42 4 0.03
43 1 0.01
44 4 0.03
45 39 0.34
46 33 0.29
47 7 0.06
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (44 bp):
TTCCACTGTTCTTCAGGGAAAATCAAATCTGAAATGTGGATTCA
Found at i:923328 original size:18 final size:18
Alignment explanation
Indices: 923307--923344 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
923297 ATTCTTAGTC
923307 TTTTTATTATTATTTCAT
1 TTTTTATTATTATTTCAT
* *
923325 TTTTTCTTTTTATTTCAT
1 TTTTTATTATTATTTCAT
923343 TT
1 TT
923345 CCTTTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATTATTATTTCAT
Found at i:923354 original size:24 final size:24
Alignment explanation
Indices: 923305--923354 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
923295 TTATTCTTAG
*
923305 TCTTTTTATTATTATTTCATTTTT
1 TCTTTTTATTATCATTTCATTTTT
*
923329 TCTTTTTATT-TCATTTCCTTTATT
1 TCTTTTTATTATCATTTCATTT-TT
923353 TC
1 TC
923355 CTTCTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (24 bp):
TCTTTTTATTATCATTTCATTTTT
Found at i:924063 original size:257 final size:259
Alignment explanation
Indices: 923372--925581 Score: 2614
Period size: 257 Copynumber: 8.7 Consensus size: 259
923362 AATATTTATT
* * * * *
923372 TTAAATGAGAAACTTTGAAATTAGCTTTCTCATTTTCTT-ACAAATCATATGAAAGCATCTTGCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGA-AAATCATGTGAAAACATCTTGCC
* *
923436 CGAAGGTCTTATAGATGGCCCGAAGGACATATCATCTTGCTCGAAAGACTGACAGATGACCCGAA
65 CGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAA
* * * * *
923501 GAATTTAATAATCATGCTCGAAAGACTTACTAATGGCCCAAAAGACTTACCAATTTTGGAAATAG
130 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
* * * * * *
923566 TTTACTAGGTAAGGAACTTTGGAAATTGCTTTCTTACTTTTCAAAAATTTCATTTTATGAAAATA
195 TTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAACA
* * * * * * * *
923631 TTCAGTGAGAAACTATGGAAATCGATTTCTCATTTTTTTTAAAAAATCATGTGTAAACATCCTGC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCA-TTTTTTT-GAAAATCATGTGAAAACATCTTGC
* * * *
923696 CCGAAGGTCTTATAGAT-GCCCCAAGGACTTATCATCTTGTTTGAAAGACTGACAGATGACCTAA
64 CCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGA
* * *
923760 AGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCTGAAGGACTTACAAATTTTGGAAATA
129 AGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATA
* * * *
923825 GTTTATTGGGTATGAAACTTTTGAAATCGCTTTCTTACTCTTCAAAAAATTCATTTTCTGAAAAC
194 GTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAAC
923890 A
259 A
* *
923891 TTAAATGATAAACTTTGAAAATCGCTTTCTC-TTTTTTTGAAGATCATGTGAAAACATCTTGCCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
* * ** * *
923955 GGAGATCTTATAGATGGCTGGAAGGGCTTAT-ATCTTGCTCGAAAGACTGACAGATTACCTGAAG
66 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAAG
* *
924019 GATTTAATCATCGTGCTTGAAATG-CTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
131 GATTTAATCATCATGCTCGAAA-GACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
* * *
924083 TTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTT-AAAAATTTCATTTTCTAAAAAAA
195 TTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAACA
*
924147 TTAAATGAGAAACTTTGAAAATCGCTTTCTCA-TTTTTTGAAAATCATGTGAAAGCATCTTGCCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
* * * * *
924211 GAAGGTCTTATAGAT-ACCCGAAGG-CTTATCATCTTGCCCGAAATAATGACAGATGACTTGAAG
66 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAAG
* * * * *
924274 GATTTAATCGTCATGGTCGAAAGACTTACTGATGGCCCGAAGAACTTTCAAATTTTGGAAATAGT
131 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* *
924339 TTACTGGGTAAGAAACTTTGGAAATCGCTTTTTTACTCTTCAAAATTTTCATTTTCTGAAAACA
196 TTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAACA
924403 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
* *
924468 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAAACTGACAGATGA-CTCGAA
66 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCT-GAA
*
924532 GGATTTAATCATCATGCTCGAAAGACTTATTGAT-GCCCTGAAGGACTTACCAATTTTGGAAATA
130 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCC-GAAGGACTTACCAATTTTGGAAATA
* * * * *
924596 GTTTACTGGGTAAGAGACTTTAGAAATCACTTTCTTACTCTTCAATAATTTCATTTTCTAAAAAC
194 GTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAAC
924661 A
259 A
* * * * ** * *
924662 TTAAATGAGAAACTTTGAAAATCGATTTCTGA-TTTATAGAAAATCATGCAAAAATATCTTACCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
* * *
924726 GAAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTTGAAAGACTGATAGATGACCTGAAG
66 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAAG
* ** * **
924791 GATTTAATCATCAAGCTCGAAAGGGTTATTGATGGCCATAAGGACTTACCAA-TTTGGAAATA-T
131 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* ** * * *
924854 TCTACTGAGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATCTCATTTTCTGAAAATA
196 T-TACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAACA
* * * * * * *
924919 CTAAATAAGAAACTTTGAAAATCGCTTTCTCATTTTTTT--AATTTACGTGAAAACATCCTACCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
* * * * *
924982 GAAGGTCTTACT-GAAGGCCCAAAGGACTTATCATCTTGTTCGAAAGACTTACAGATGACCCGAA
66 GAAGGTCTTA-TAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAA
* * * * *
925046 TGATTTAATCACCATGATTGAAAGACTTACTGACGGCCC----G------CAATTTTGGAAATAG
130 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAG
* * *
925101 TTTACTTGGTAAGAAACTTTGGAAATCACTTTCTTACTCTTCAAAGATTTCA-TTTCTGAAAACA
195 TTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAACA
* ** * *
925165 TTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTACAAAATCTTGTGAAAACAT-TCGCCC
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
* * * * *
925229 GAAGGTCTTATAGATGGCCCGAAGGATTTATCATCTTACTCAAAATACTGACAGATGACCCGAAG
66 GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAAG
* * * * *
925294 CATTTAATCATCATGTTGGAATGACTTATTGATGGCCCGAAGGACTTA-C-----------TA--
131 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* ** * * * *
925345 --A----GTAAGAAACTTTGGGAATCATTTTCTTACTTTTTAAAATTTTCATTTTCAT-AAAAGA
196 TTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTC-TGAAAACA
* * * * *
925403 TTTGAATGAAAAACTTTGGAAATCGCTTTCTCA-TTTTTCGAAAATCATGTGAAAACATCATGCC
1 -TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCC
** * * *
925467 CGAACATCTTATGGATGGCCCAAAGGACTTATCATCTTGGTCGAAAGACTGACAGATGACCTGAA
65 CGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAA
* * * * *
925532 GGAATTAATCATCATGCTCAAAAGACTTACTGATGGACCAAATGACTTAC
130 GGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
925582 TAAGTAAGAA
Statistics
Matches: 1676, Mismatches: 237, Indels: 95
0.83 0.12 0.05
Matches are distributed among these distances:
237 38 0.02
238 31 0.02
239 126 0.08
241 1 0.00
245 2 0.00
246 50 0.03
247 142 0.08
248 15 0.01
251 1 0.00
252 1 0.00
254 6 0.00
255 128 0.08
256 250 0.15
257 297 0.18
258 162 0.10
259 203 0.12
260 187 0.11
261 35 0.02
262 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (259 bp):
TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCTTGCCC
GAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCTGAAG
GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
TTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTCTTCAAAAATTTCATTTTCTGAAAACA
Found at i:924252 original size:20 final size:21
Alignment explanation
Indices: 924201--924252 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
924191 CATGTGAAAG
924201 CATCTTGCCCGAAGGTCTTAT
1 CATCTTGCCCGAAGGTCTTAT
** *
924222 -A-GATACCCGAAGG-CTTAT
1 CATCTTGCCCGAAGGTCTTAT
924240 CATCTTGCCCGAA
1 CATCTTGCCCGAA
924253 ATAATGACAG
Statistics
Matches: 23, Mismatches: 6, Indels: 5
0.68 0.18 0.15
Matches are distributed among these distances:
18 5 0.22
19 10 0.43
20 8 0.35
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (21 bp):
CATCTTGCCCGAAGGTCTTAT
Found at i:925285 original size:247 final size:239
Alignment explanation
Indices: 924605--925685 Score: 978
Period size: 239 Copynumber: 4.4 Consensus size: 239
924595 AGTTTACTGG
* * * * * * *
924605 GTAAGAGACTTTAGAAATCACTTTCTTACTCTTCAATAATTTCATTTTCTAAAAACA-TTAAATG
1 GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAATG
* * * ** * * *
924669 AGAAACTTTGAAAATCGATTTCTGATTTATAGAAAATCATG-CAAAA-ATATCTTACCCGAAGGT
66 AGAAACTTTGAAAATCGCTTTCTCATTTTTTCAAAATCTTGTGAAAACAT-TC-TGCCCGAAGGT
* * *
924732 CTTATAGATGGCCCAAAGGACTTATCATCTTGCTTGAAAGACTGATAGATGACCTGAAGGATTTA
129 CTTAT-GATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA-GATTTA
* * ** * * * *
924797 ATCATCAAGCTCGAAAGGGTTATTGATGGCCATAAGGACTTACCAATTTGGAAATATTCTACTGA
192 ATCATCATG-TTGAAAGACTTACTGATGGCC-------C---GCAA-TTGG----ACT-TACTAA
* * * *
924862 GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATCTCATTTTCTGAAAATA-CTAAATA
1 GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAATG
* * *
924926 AGAAACTTTGAAAATCGCTTTCTCATTTTTT--TAAT-TTACGTGAAAACATCCTACCCGAAGGT
66 AGAAACTTTGAAAATCGCTTTCTCATTTTTTCAAAATCTT--GTGAAAACATTCTGCCCGAAGGT
* * *
924988 CTTACTGAAGGCCCAAAGGACTTATCATCTTGTTCGAAAGACTTACAGATGACCCGAATGATTTA
129 CTTA-TGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA-GATTTA
* * * **
925053 ATCACCATGATTGAAAGACTTACTGACGGCCCGCAATTTTGGAAATAGTTTACTTG
192 ATCATCATG-TTGAAAGACTTACTGATGGCCCGCAA--TTGG----A-CTTACTAA
* * * *
925109 GTAAGAAACTTTGGAAATCACTTTCTTACTCTTCAAAGATTTCA-TTTCTGAAAACA-TTAAATG
1 GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAATG
*
925172 AGAAACTTTGAAAATCACTTTCTCATTTTTTACAAAATCTTGTGAAAACATTC-GCCCGAAGGTC
66 AGAAACTTTGAAAATCGCTTTCTCATTTTTT-CAAAATCTTGTGAAAACATTCTGCCCGAAGGTC
* * * * *
925236 TTATAGATGGCCCGAAGGATTTATCATCTTACTCAAAATACTGACAGATGACCCGAAGCATTTAA
130 TTAT-GATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAG-ATTTAA
* *
925301 TCATCATGTTGGAATGACTTATTGATGGCCCG-AA--GGACTTACTAA
193 TCATCATGTT-GAAAGACTTACTGATGGCCCGCAATTGGACTTACTAA
* * * *
925346 GTAAGAAACTTTGGGAATCATTTTCTTACTTTTTAAAATTTTCATTTTCAT-AAAAGATTTGAAT
1 GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTC-TGAAAAGATTTAAAT
* * * **
925410 GAAAAACTTTGGAAATCGCTTTCTCA-TTTTTCGAAAATCATGTGAAAACA-TCATGCCCGAACA
65 GAGAAACTTTGAAAATCGCTTTCTCATTTTTTC-AAAATCTTGTGAAAACATTC-TGCCCGAAGG
* * *
925473 TCTTATGGATGGCCCAAAGGACTTATCATCTTGGTCGAAAGACTGACAGATGACCTGAAGGAATT
128 TCTTAT-GATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAA-GATTT
** * *
925538 AATCATCATGCTCAAAAGACTTACTGATGG-AC-CAAAT-GACTTACTAA
191 AATCATCATG-TTGAAAGACTTACTGATGGCCCGCAATTGGACTTACTAA
* *
925585 GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAGATTTAAATG
1 GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAATG
* *
925650 AGAAACTTTGGAAACCGCTTTCTCA-TTTTTCAAAAT
66 AGAAACTTTGAAAATCGCTTTCTCATTTTTTCAAAAT
925686 AACTTAATGG
Statistics
Matches: 700, Mismatches: 98, Indels: 71
0.81 0.11 0.08
Matches are distributed among these distances:
237 46 0.07
238 39 0.06
239 211 0.30
240 2 0.00
242 2 0.00
246 55 0.08
247 142 0.20
248 13 0.02
249 4 0.01
250 2 0.00
254 1 0.00
255 3 0.00
256 91 0.13
257 87 0.12
258 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (239 bp):
GTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAGATTTAAATG
AGAAACTTTGAAAATCGCTTTCTCATTTTTTCAAAATCTTGTGAAAACATTCTGCCCGAAGGTCT
TATGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGATTTAATCA
TCATGTTGAAAGACTTACTGATGGCCCGCAATTGGACTTACTAA
Found at i:945772 original size:20 final size:20
Alignment explanation
Indices: 945747--945787 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
945737 CATTTCTGGT
* *
945747 CCTTTATAGAGAATATAGAC
1 CCTTTAGAGAGAATACAGAC
945767 CCTTTAGAGAGAATACAGAC
1 CCTTTAGAGAGAATACAGAC
945787 C
1 C
945788 ATAGCTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (20 bp):
CCTTTAGAGAGAATACAGAC
Found at i:947355 original size:13 final size:13
Alignment explanation
Indices: 947337--947365 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
947327 AAGATTCCTT
947337 TTGAACCTTCAAA
1 TTGAACCTTCAAA
947350 TTGAACCTTCAAA
1 TTGAACCTTCAAA
947363 TTG
1 TTG
947366 CTATTTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (13 bp):
TTGAACCTTCAAA
Found at i:948848 original size:17 final size:17
Alignment explanation
Indices: 948826--948859 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
948816 CTTTTACCTT
948826 TTTTTTTACTTAACTTA
1 TTTTTTTACTTAACTTA
948843 TTTTTTTACTTAACTTA
1 TTTTTTTACTTAACTTA
948860 AACTTAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTTACTTAACTTA
Found at i:948985 original size:21 final size:21
Alignment explanation
Indices: 948959--949000 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
948949 TTTGTTTTAT
948959 TCATGAAAACTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
*
948980 TCATGAAACCTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
949001 ATAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.29
Consensus pattern (21 bp):
TCATGAAAACTATCTATAAAA
Found at i:951109 original size:12 final size:12
Alignment explanation
Indices: 951092--951148 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 12
951082 ATTATTAATA
951092 TATAAATATTAT
1 TATAAATATTAT
*
951104 TATAAATAGTATTAA
1 TAT-AA-A-TATTAT
951119 TATAAATATTAT
1 TATAAATATTAT
951131 TAATATAATATTACT
1 T-ATA-AATATTA-T
951146 TAT
1 TAT
951149 TCAACAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.24
13 6 0.16
14 12 0.32
15 10 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TATAAATATTAT
Found at i:951110 original size:29 final size:28
Alignment explanation
Indices: 951077--951143 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 28
951067 TTCTTAGAAT
951077 TAAATATTATTAATATATAAATATTATT-A
1 TAAATATTATT-A-ATATAAATATTATTAA
*
951106 TAAATAGTATTAATATAAATATTATTAA
1 TAAATATTATTAATATAAATATTATTAA
951134 TATAATATTA
1 TA-AATATTA
951144 CTTATTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 14 0.41
28 4 0.12
29 16 0.47
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TAAATATTATTAATATAAATATTATTAA
Found at i:951121 original size:27 final size:29
Alignment explanation
Indices: 951077--951132 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
951067 TTCTTAGAAT
*
951077 TAAATATTATTAATATATAAATATTATTA
1 TAAATAGTATTAATATATAAATATTATTA
951106 TAAATAGTATT-A-ATATAAATATTATTA
1 TAAATAGTATTAATATATAAATATTATTA
951133 ATATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
28 1 0.04
29 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TAAATAGTATTAATATATAAATATTATTA
Found at i:951122 original size:15 final size:15
Alignment explanation
Indices: 951077--951143 Score: 86
Period size: 15 Copynumber: 4.6 Consensus size: 15
951067 TTCTTAGAAT
951077 TAAATATTATTAATA
1 TAAATATTATTAATA
*
951092 TATAA-A-TATTATTA
1 TA-AATATTATTAATA
*
951106 TAAATAGTATTAATA
1 TAAATATTATTAATA
951121 TAAATATTATTAATA
1 TAAATATTATTAATA
951136 T-AATATTA
1 TAAATATTA
951144 CTTATTCAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 2 0.04
14 17 0.37
15 25 0.54
16 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
TAAATATTATTAATA
Found at i:952442 original size:17 final size:17
Alignment explanation
Indices: 952420--952454 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
952410 TTTCGAAATA
952420 ATTACGAATATAGTAAT
1 ATTACGAATATAGTAAT
952437 ATTACGAATATAGTAAT
1 ATTACGAATATAGTAAT
952454 A
1 A
952455 GATTTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTACGAATATAGTAAT
Found at i:952653 original size:28 final size:28
Alignment explanation
Indices: 952622--952705 Score: 159
Period size: 28 Copynumber: 3.0 Consensus size: 28
952612 ATCTTTACTT
952622 TAATAGAATAGGAGGTTTACTTACTCAG
1 TAATAGAATAGGAGGTTTACTTACTCAG
952650 TAATAGAATAGGAGGTTTACTTACTCAG
1 TAATAGAATAGGAGGTTTACTTACTCAG
*
952678 TAATAGACTAGGAGGTTTACTTACTCAG
1 TAATAGAATAGGAGGTTTACTTACTCAG
952706 ATTTTCTTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (28 bp):
TAATAGAATAGGAGGTTTACTTACTCAG
Found at i:956426 original size:2 final size:2
Alignment explanation
Indices: 956419--956455 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
956409 TTAATAAGTA
956419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
956456 AAATAAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:964483 original size:131 final size:131
Alignment explanation
Indices: 964252--964608 Score: 493
Period size: 131 Copynumber: 2.7 Consensus size: 131
964242 AGAGAAAACA
* * * *
964252 ATAATATCTAATTATTTCCAATTGAGAATAAATGACCTTTCATGCGTTAAAACAATCATTTATTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
* * * **
964317 C-CTCAATTGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATTCGAG-TGAAA
66 CTC-CAACTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACGAGAT-AAA
964380 ATG
129 ATG
* * *
964383 ATAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAAAGCAATAATTTATTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
*
964448 CTCCAACTAAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACGAGATAAAAT
66 CTCCAACTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACGAGATAAAAT
964513 G
131 G
* * * *
964514 GTAATATCTGATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAAATCATTTACTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
* * * *
964579 CTCCGACTGAAACGAGGAGATATTACTATT
66 CTCCAACTGAAATGAAGAGATATCACTATT
964609 TTCAATATTG
Statistics
Matches: 199, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 197 0.99
132 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (131 bp):
ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
CTCCAACTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACGAGATAAAAT
G
Found at i:966716 original size:3 final size:3
Alignment explanation
Indices: 966708--966739 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
966698 AATGTAACAA
966708 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
966740 AGTCAGGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:967434 original size:21 final size:22
Alignment explanation
Indices: 967404--967450 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
967394 TGTAGTATCA
967404 ATACTTCATTTGATCAATACTG
1 ATACTTCATTTGATCAATACTG
* *
967426 ATAC-TCATTTGATTAGTACTG
1 ATACTTCATTTGATCAATACTG
967447 ATAC
1 ATAC
967451 CCTATTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (22 bp):
ATACTTCATTTGATCAATACTG
Found at i:975986 original size:28 final size:29
Alignment explanation
Indices: 975925--975990 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
975915 ATTTGATTCT
*
975925 TTTAATTTCTGTTATTTACATTTCCTCCC
1 TTTAATTTCTGCTATTTACATTTCCTCCC
**
975954 TTTAATTTCTGCTATTATA-A-TTCCTGTC
1 TTTAATTTCTGCTATT-TACATTTCCTCCC
975982 TTTAATTTC
1 TTTAATTTC
975991 CAGAATTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 15 0.45
29 16 0.48
30 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.56
Consensus pattern (29 bp):
TTTAATTTCTGCTATTTACATTTCCTCCC
Found at i:979152 original size:30 final size:31
Alignment explanation
Indices: 979096--979161 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
979086 AACAAATTGA
*
979096 TCACTAATGTTATTGATTTGTAACAAAATAG
1 TCACTAATGTTATCGATTTGTAACAAAATAG
979127 TCACTAATGTTATCGATTT-TAACAAAATAG
1 TCACTAATGTTATCGATTTGTAACAAAATAG
979157 TCACT
1 TCACT
979162 CTGTCATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (31 bp):
TCACTAATGTTATCGATTTGTAACAAAATAG
Found at i:982660 original size:2 final size:2
Alignment explanation
Indices: 982653--982678 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
982643 TAACTTAACA
982653 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
982679 TTTTAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:984977 original size:24 final size:26
Alignment explanation
Indices: 984940--984994 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
984930 GCATGATTTC
*
984940 ATTTT-AGAGGG-AA-AACTTATAAA
1 ATTTTAAGAGGGAAAGAACTAATAAA
*
984963 ATTTTAAGTGGGAAAGAACTAATAAA
1 ATTTTAAGAGGGAAAGAACTAATAAA
984989 ATTTTA
1 ATTTTA
984995 GGGCGGGCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 2 0.07
26 15 0.56
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (26 bp):
ATTTTAAGAGGGAAAGAACTAATAAA
Found at i:985263 original size:41 final size:43
Alignment explanation
Indices: 985205--985288 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 43
985195 TAGTTTCTAG
* *
985205 AAAATGGTTTTTTGAAAACATATA-A-TATATATTTTTAAAAA
1 AAAATGGTTTTTCGAAAACATATATATTATATAATTTTAAAAA
* *
985246 AAAATCGG-TTTTCGAAAATATATATATTATATAATTTTGAAAA
1 AAAAT-GGTTTTTCGAAAACATATATATTATATAATTTTAAAAA
985289 CGGTATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 19 0.53
42 3 0.08
43 14 0.39
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (43 bp):
AAAATGGTTTTTCGAAAACATATATATTATATAATTTTAAAAA
Found at i:985445 original size:36 final size:36
Alignment explanation
Indices: 985260--985462 Score: 212
Period size: 38 Copynumber: 5.5 Consensus size: 36
985250 TCGGTTTTCG
* * *** *
985260 AAAATATATATATTATATAATTTTGAAAACGGTATT
1 AAAATATATATAATATATAGTTTTGAAAATATTTTT
* * **
985296 AAAAAATATATATTATATAGTTTTGAAAATATTTCG
1 AAAATATATATAATATATAGTTTTGAAAATATTTTT
* *
985332 AAAGCATATATATAATATATAATTTTTGAAAATATTTTA
1 AAA--ATATATATAATATAT-AGTTTTGAAAATATTTTT
985371 AAATATATATATAATATATAGGTTTTGAAAATATTTTTT
1 AAA-ATATATATAATATATA-GTTTTGAAAATA-TTTTT
*
985410 AAAATATATATAATATATAGGTTTGAAAATATTTTT
1 AAAATATATATAATATATAGTTTTGAAAATATTTTT
985446 GAAAATATAT-T-ATATAT
1 -AAAATATATATAATATAT
985463 TCTAAAAAAA
Statistics
Matches: 144, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
35 6 0.04
36 37 0.26
37 21 0.15
38 55 0.38
39 25 0.17
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (36 bp):
AAAATATATATAATATATAGTTTTGAAAATATTTTT
Found at i:985508 original size:35 final size:34
Alignment explanation
Indices: 985339--985507 Score: 132
Period size: 35 Copynumber: 4.7 Consensus size: 34
985329 TCGAAAGCAT
*
985339 ATATATAATATATAAT-TTTTGAAAATATTTTAAAA
1 ATATAT-ATATAT-ATGTTTTGAAAATATTTTTAAA
985374 TATATATATAATATATAGGTTTTGAAAATATTTTTTAAA
1 -ATATATAT-ATATAT--GTTTTGAAAATA-TTTTTAAA
*
985413 ATATATATAATATATAGGTTTGAAAATATTTTTGAAA
1 ATATATAT-ATATAT-GTTTTGAAAATATTTTT-AAA
***
985450 ATATAT-TATATAT-TCTAAAAAAAATAACTTTTT-AA
1 ATATATATATATATGT-T-TTGAAAAT-A-TTTTTAAA
985485 ATATATAT-TATATGTTTTGAAAA
1 ATATATATATATATGTTTTGAAAA
985508 AAACAATTTA
Statistics
Matches: 111, Mismatches: 10, Indels: 26
0.76 0.07 0.18
Matches are distributed among these distances:
34 5 0.05
35 29 0.26
36 19 0.17
37 25 0.23
38 26 0.23
39 7 0.06
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (34 bp):
ATATATATATATATGTTTTGAAAATATTTTTAAA
Done.